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Series GSE70974 Query DataSets for GSE70974
Status Public on Jul 14, 2016
Title Tip5/Baz2a Regulates Chromatin Architecture and Gene Expression to Maintain Self-renewal and Pluripotency of Embryonic Stem Cells [ChIP-seq]
Organism Mus musculus
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary It is unclear how gene networks that regulate self-renewal and pluripotency of embryonic stem (ES) cells are established. We searched for factors that contribute to forming functional chromatin architecture in ES cells and identified Tip5 (also called Baz2a) as a genome organizer, folding chromatin and recruiting chromatin remodeling/epigenetic factors to genes. Tip5 binds specialized genomic sequences called base-unpairing regions (BURs) and localizes near heterochromatin. Through chromatin looping Tip5 recruits the polycomb-repressive complex 2 (PRC2) subunits and Jarid2 to target genes far from Tip5-bound BURs and alters their histone profiles. In ES cells Tip5 represses PRC2-bound developmental genes and regulates non-PRC2-bound genes that are enriched for G-protein coupled receptor signaling. Tip5 knockdown caused misexpression of these genes important for ES cell maintenance, leading to rapid ES cell differentiation and impaired pluripotency. These data suggest that Tip5 regulates multiple processes through ES cell-specific genome organization to maintain ES cell stemness.
 
Overall design Genome occupancy profiles of Tip5, Jarid2, Suz12, and relevant histone modifications, were determined for E14 and E14 Tip5-knockdown ES cells.
 
Contributor(s) Han H, Richards HW
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Submission date Jul 15, 2015
Last update date May 15, 2019
Contact name Hunter Richards
E-mail(s) hrichards@ucsf.edu
Organization name UCSF
Department Orofacial Sciences
Lab Kohwi-Shigematsu
Street address 513 Parnassus Ave., HSW 863
City San Francisco
State/province CA
ZIP/Postal code 94103
Country USA
 
Platforms (1)
GPL13112 Illumina HiSeq 2000 (Mus musculus)
Samples (16)
GSM1826460 TKS169 E14 input coverage
GSM1826461 TKS169 E14 Suz12 coverage
GSM1826462 TKS184 E14 input coverage
This SubSeries is part of SuperSeries:
GSE70975 Tip5/Baz2a Regulates Chromatin Architecture and Gene Expression to Maintain Self-renewal and Pluripotency of Embryonic Stem Cells.
Relations
BioProject PRJNA290270
SRA SRP061297

Download family Format
SOFT formatted family file(s) SOFTHelp
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Supplementary file Size Download File type/resource
GSE70974_RAW.tar 9.3 Gb (http)(custom) TAR (of BW)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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